CM0003, CM0003 (genetic_marker) Gossypium hirsutum

Marker Overview
NameCM0003
AliasCM003
Genbank IDCC466066
TypeSSR
SpeciesGossypium hirsutum
GermplasmCoker 312
Source SequenceCC466066
Source Typegenomic
Repeat Motif(AG)22
Primer 1CM003_F: GGGCTAAACTTGAAAAATGACCA
Primer 2CM003_R: GTCTTAAAGACTGACATGCAGC
PolymorphismP_ CM0003
Publication[view all]
ContactPepper, Alan E.
CommentPrimer data obtained in 2000
Contact
NameDetails
Pepper, Alan E.
Description:Comparative genomics with Arabidopsis.
First name:Alan
Last name:Pepper
Title:Associate Professor
Institution:Texas A&M University/Department of Biology
Address:Building 1513/Borlaug Center, College Station, TX 77843-2123
Country:United States
Email:apepper@bio.tamu.edu
Phone:979-845-2518
Fax:979-862-4790
Last update:28-Feb-2009
Cross References
External references for this genetic_marker
DatabaseAccession
DB:genbankCC466066
Alignments
The following features are aligned
Feature Name Type LocationAnalysisReference
D05chromosomeD05:57436694..57436815 +Gossypium hirsutum (AD1) 'TM-1' genome UTX-JGI-Interim-release_v1.1n/a
CM018219.1chromosomeCM018219.1:56737597..56737738 +Gossypium barbadense (AD2) '3-79' genome HGS_v1.1n/a
D5_05chromosomeD5_05:51071351..51071472 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
D5_05chromosomeD5_05:51050083..51050233 +Gossypium raimondii (D5) 'D5-4' genome NSF_v1n/a
D10_05chromosomeD10_05:7253291..7253467 -Gossypium turneri (D10) genome NSF_v1_a2n/a
D10_05chromosomeD10_05:7139176..7139329 -Gossypium turneri (D10) genome NSF_v1_a2n/a
D10_05chromosomeD10_05:7152937..7153075 -Gossypium turneri (D10) genome NSF_v1_a2n/a
D10_05chromosomeD10_05:7279723..7279852 -Gossypium turneri (D10) genome NSF_v1_a2n/a
D10_05chromosomeD10_05:7168082..7168217 -Gossypium turneri (D10) genome NSF_v1_a2n/a
D10_05chromosomeD10_05:7236901..7237008 -Gossypium turneri (D10) genome NSF_v1_a2n/a
Dt_chr9chromosomeDt_chr9:5719788..5719919 -Gossypium hirsutum (AD1) 'TM-1' genome CGP-BGI_v1n/a
D05chromosomeD05:55139350..55139493 +Gossypium hirsutum (AD1) 'TM-1' genome NAU-NBI_v1.1n/a
Ghir_D05chromosomeGhir_D05:56342248..56342371 +Gossypium hirsutum (AD1) 'TM-1' genome HAU_v1 / v1.1n/a
D05chromosomeD05:57005726..57005851 +Gossypium hirsutum (AD1) 'TM-1' genome CRI_v1n/a
scaffold5607supercontigscaffold5607:102274..102411 +Gossypium barbadense (AD2) '3-79' genome HAU_v1n/a
Gbar_D05chromosomeGbar_D05:56757577..56757728 +Gossypium barbadense (AD2) '3-79' genome HAU_v2_a1n/a
D05chromosomeD05:59397624..59397761 +Gossypium barbadense (AD2) 'H7124' genome ZJU_v1.1_a1n/a
CM017705.1chromosomeCM017705.1:57396412..57396539 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017705.1chromosomeCM017705.1:57330342..57330473 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
CM017705.1chromosomeCM017705.1:57375049..57375170 +Gossypium darwinii (AD5) genome HGS_v1.1n/a
D05chromosomeD05:59354035..59354156 +Gossypium hirsutum (AD1) 'TM-1' genome UTX_v2.1n/a
Chr05chromosomeChr05:51910365..51910484 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr05chromosomeChr05:51889140..51889278 +Gossypium raimondii (D5) 'Grai D502' genome HAU_v1n/a
Chr09chromosomeChr09:51997202..51997332 +Gossypium thurberi (D1-5) genome CRI_v1n/a
Chr_09chromosomeChr_09:40473352..40473473 +Gossypium harknessii (D2-2) genome ISU_v1n/a
F05chromosomeF05:70110427..70110563 +Gossypium longicalyx (F1) genome NSF_v1n/a
Chr09chromosomeCM0003:1..296 .
Chr09:52211155..52211478 +		n/a
scaffold406supercontigCM0003:1..296 .
scaffold406:275034..275320 -		n/a
Germplasm
Stock NameType
Coker 312accession
Relationships

The following sequence_feature feature(s) derives from this genetic_marker:

Feature NameUnique NameSpeciesType
CC466066CC466066Gossypium hirsutumsequence_feature


Map Positions
#Map NameLinkage GroupBinPositionLocusMapViewer
1Deltapine-61 x Texas-701, F2 (2007)AD_ch19_Dt.05N/A14.1CM3-95View
2Emian-22 x 3-79, BC1 (2011)AD_ch19_Dt.05N/A33.21CM3View
3AD-genome wide Reference Map (2009)AD_ch19_Dt.05N/A294cm0003View
4TM-1 x 3-79, RIL (2012)AD_ch19_Dt.05N/A138.75cm0003View
5TM-1 x 3-79, RIL (2014)AD_ch19_Dt.05N/A47.7cm0003View
6TM-1 x 3-79, RIL (2012.v3)AD_ch19_Dt.05N/A47.73CM0003View
Sequence
>CM0003 ID=CM0003; Name=CM0003; organism=Gossypium hirsutum; type=genetic_marker; length=122bp
GGGCTAAACTTGAAAAATGACCATTTTCCTATATAATGCAGAGGCAGAGA
GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGCAAAACTGGAA
GCTGCATGTCAGTCTTTAAGAC